git: 117cd80d6d50 - main - biology/atac-seq: Update to 0.3.1

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From: Jason W. Bacon <jwb_at_FreeBSD.org>
Date: Sat, 04 Jul 2026 00:42:16 UTC
The branch main has been updated by jwb:

URL: https://cgit.FreeBSD.org/ports/commit/?id=117cd80d6d50120ce912999f0eb8c65da0532187

commit 117cd80d6d50120ce912999f0eb8c65da0532187
Author:     Jason W. Bacon <jwb@FreeBSD.org>
AuthorDate: 2026-07-04 00:39:42 +0000
Commit:     Jason W. Bacon <jwb@FreeBSD.org>
CommitDate: 2026-07-04 00:39:42 +0000

    biology/atac-seq: Update to 0.3.1
    
    Drop py-macs2: Incompatible with python 3.12 and unmaintained
    Install py-macs2 unconditionally
---
 biology/atac-seq/Makefile | 5 ++---
 biology/atac-seq/distinfo | 2 +-
 2 files changed, 3 insertions(+), 4 deletions(-)

diff --git a/biology/atac-seq/Makefile b/biology/atac-seq/Makefile
index 8c9a50b7d12e..52004a530947 100644
--- a/biology/atac-seq/Makefile
+++ b/biology/atac-seq/Makefile
@@ -2,7 +2,7 @@ PORTNAME=	atac-seq
 # Update major version only if the metaport is overhauled
 # Update minor version when adding or removing dependencies
 # Update revision for all other changes
-DISTVERSION=	0.3.0
+DISTVERSION=	0.3.1
 CATEGORIES=	biology python
 MASTER_SITES=	# empty
 
@@ -15,13 +15,12 @@ LICENSE=	BSD2CLAUSE
 RUN_DEPENDS=	sra-tools>0:biology/sra-tools \
 		fastq-trim>0:biology/fastq-trim \
 		fastqc>0:biology/fastqc \
-		${PYTHON_PKGNAMEPREFIX}MACS3>0:biology/py-macs3@${PY_FLAVOR} \
 		${PYTHON_PKGNAMEPREFIX}multiqc>0:biology/py-multiqc@${PY_FLAVOR} \
 		biolibc-tools>0:biology/biolibc-tools \
 		bwa>0:biology/bwa \
 		bowtie2>0:biology/bowtie2 \
 		samtools>0:biology/samtools \
-		${PYTHON_PKGNAMEPREFIX}macs2>0:biology/py-macs2@${PY_FLAVOR} \
+		${PYTHON_PKGNAMEPREFIX}MACS3>0:biology/py-macs3@${PY_FLAVOR} \
 		fasda>0:biology/fasda \
 		fasda-utils>0:biology/fasda-utils \
 		peak-classifier>0:biology/peak-classifier \
diff --git a/biology/atac-seq/distinfo b/biology/atac-seq/distinfo
index 7ab5dc3a527d..79cf14b6de7f 100644
--- a/biology/atac-seq/distinfo
+++ b/biology/atac-seq/distinfo
@@ -1 +1 @@
-TIMESTAMP = 1772714589
+TIMESTAMP = 1673549889